5LL6

Structure of the 40S ABCE1 post-splitting complex in ribosome recycling and translation initiation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
J [auth X]SCOP2B SuperfamilyRibosomal S17 N-terminal domain-like8052736 3002138 SCOP2B (2022-06-29)
J [auth X]SCOP2B SuperfamilyNucleic acid-binding proteins8052738 3000135 SCOP2B (2022-06-29)
K [auth Y]SCOP2B SuperfamilyS15/NS1 RNA-binding domain8052974 3001284 SCOP2B (2022-06-29)
K [auth Y]SCOP2B SuperfamilyHomeodomain-like8052973 3000001 SCOP2B (2022-06-29)
L [auth Z]SCOP2B SuperfamilyTranslational machinery components8095805 3000571 SCOP2B (2022-06-29)
M [auth a]SCOP2B SuperfamilyGlucocorticoid receptor-like (DNA-binding domain)8053136 3000068 SCOP2B (2022-06-29)
N [auth b]SCOP2B SuperfamilyRibosomal protein S88096922 3000709 SCOP2B (2022-06-29)
Q [auth e]SCOP2B SuperfamilyGlucocorticoid receptor-like (DNA-binding domain)8093614 3000068 SCOP2B (2022-06-29)
S [auth g]SCOP2B SuperfamilyRibosomal protein S30e-like8053451 3002190 SCOP2B (2022-06-29)
B [auth P]SCOP2B SuperfamilySIS domain/Ribosomal protein S2-like8061280 3001397 SCOP2B (2022-06-29)
T [auth h]SCOP2B SuperfamilyABC transporter-like P-loop ATPases8089770 3002020 SCOP2B (2022-06-29)
T [auth h]SCOP2B SuperfamilyABC transporter-like P-loop ATPases8089771 3002020 SCOP2B (2022-06-29)
T [auth h]SCOP2B Superfamily4Fe-4S ferredoxins8089767 3000020 SCOP2B (2022-06-29)
C [auth Q]SCOP2B SuperfamilyRibosomal S3Ae-like8053211 3002166 SCOP2B (2022-06-29)
E [auth S]SCOP2B SuperfamilyAlpha-L RNA-binding motif8052758 3001473 SCOP2B (2022-06-29)
E [auth S]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain8052760 3000334 SCOP2B (2022-06-29)
E [auth S]SCOP2B SuperfamilyNucleic acid-binding proteins8052759 3000135 SCOP2B (2022-06-29)
F [auth T]SCOP2B SuperfamilyGS N-terminal domain-like8053173 3000408 SCOP2B (2022-06-29)
H [auth V]SCOP2B Superfamily50S Ribosomal protein L14-like8053083 3000433 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
J [auth X]PF00366,PF16205e5ll6X1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: PF00366,PF16205ECOD (1.6)
K [auth Y]PF08069e5ll6Y2 A: alpha arraysX: HTHH: 40S ribosomal protein S13 N-terminal domain (From Topology)T: 40S ribosomal protein S13 N-terminal domainF: PF08069ECOD (1.6)
K [auth Y]PF00312e5ll6Y1 A: alpha arraysX: S15/NS1 RNA-binding domain (From Topology)H: S15/NS1 RNA-binding domain (From Topology)T: S15/NS1 RNA-binding domainF: PF00312ECOD (1.6)
L [auth Z]PF00411e5ll6Z1 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: PF00411ECOD (1.6)
M [auth a]PF01249e5ll6a1 A: a+b two layersX: 40S ribosomal protein rpS21 (S21e) (From Topology)H: 40S ribosomal protein rpS21 (S21e) (From Topology)T: 40S ribosomal protein rpS21 (S21e)F: PF01249ECOD (1.6)
N [auth b]PF00410e5ll6b2 A: a+b two layersX: R3H domain-likeH: Ribosomal protein S8, N-terminal domain (From Topology)T: Ribosomal protein S8, N-terminal domainF: PF00410ECOD (1.6)
N [auth b]PF00410e5ll6b1 A: a+b two layersX: Ribosomal protein S8, C-terminal domain (From Topology)H: Ribosomal protein S8, C-terminal domain (From Topology)T: Ribosomal protein S8, C-terminal domainF: PF00410ECOD (1.6)
O [auth c]PF00164e5ll6c1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: PF00164ECOD (1.6)
P [auth d]PF01282e5ll6d1 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal proteins S24e, L23 and L15e (From Topology)T: Ribosomal proteins S24e, L23 and L15eF: PF01282ECOD (1.6)
Q [auth e]PF01283e5ll6e1 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: LIM domain-likeT: LIM domain-likeF: PF01283ECOD (1.6)
R [auth f]PF01667e5ll6f1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: PF01667ECOD (1.6)
S [auth g]PF04758e5ll6g1 A: extended segmentsX: 40S ribosomal protein S30 (S30e) (From Topology)H: 40S ribosomal protein S30 (S30e) (From Topology)T: 40S ribosomal protein S30 (S30e)F: PF04758ECOD (1.6)
B [auth P]PF00318e5ll6P1 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Ribosomal protein S2/SIS domain (From Topology)T: Ribosomal protein S2/SIS domainF: PF00318ECOD (1.6)
T [auth h]PF00037,PF04068e5ll6h3 A: a+b two layersX: 4Fe-4S ferredoxin (From Topology)H: 4Fe-4S ferredoxin (From Topology)T: 4Fe-4S ferredoxinF: PF00037,PF04068ECOD (1.6)
T [auth h]PF00005e5ll6h2 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: PF00005ECOD (1.6)
C [auth Q]PF01015e5ll6Q1 A: beta barrelsX: Ribosomal protein L25-likeH: 40S ribosomal protein S3A N-terminal domain (From Topology)T: 40S ribosomal protein S3A N-terminal domainF: PF01015ECOD (1.6)
C [auth Q]PF01015e5ll6Q2 A: a+b two layersX: T-foldH: 40S ribosomal protein S3A C-terminal domain (From Topology)T: 40S ribosomal protein S3A C-terminal domainF: PF01015ECOD (1.6)
D [auth R]PF03719e5ll6R1 A: a+b two layersX: Ribosomal protein S5 domain 2-like (From Topology)H: Ribosomal protein S5 domain 2-like (From Topology)T: Ribosomal protein S5 domain 2-likeF: PF03719ECOD (1.6)
D [auth R]PF00333e5ll6R3 A: a+b two layersX: dsRBD-likeH: dsRNA-binding domain-like (From Topology)T: dsRNA-binding domain-likeF: PF00333ECOD (1.6)
D [auth R]PF00333e5ll6R2 A: extended segmentsX: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology)H: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology)T: N-terminal region in 40S ribosomal protein rpS2 (S5p)F: PF00333ECOD (1.6)
E [auth S]PF00900e5ll6S2 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: PF00900ECOD (1.6)
E [auth S]PF00467,PF16121e5ll6S3 A: beta barrelsX: SH3H: SH3T: SH3F: PF00467,PF16121ECOD (1.6)
E [auth S]PF00900,PF01479,PF08071e5ll6S1 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Alpha-L RNA-binding motifF: PF00900,PF01479,PF08071ECOD (1.6)
F [auth T]PF01092e5ll6T1 A: beta barrelsX: Ribosomal protein L25-likeH: Ribosomal protein L25-like (From Topology)T: Ribosomal protein L25-likeF: PF01092ECOD (1.6)
G [auth U]PF01251e5ll6U1 A: a+b two layersX: Alpha-lytic protease prodomain-likeH: 40S ribosomal protein S7-A (From Topology)T: 40S ribosomal protein S7-AF: PF01251ECOD (1.6)
H [auth V]PF01201e5ll6V1 A: beta barrelsX: Ribosomal protein L14-likeH: Ribosomal protein L14-related (From Topology)T: Ribosomal protein L14-relatedF: PF01201ECOD (1.6)
I [auth W]PF00163,PF01479e5ll6W1 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Alpha-L RNA-binding motifF: PF00163,PF01479ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
J [auth X]2.40.50.1000 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) CATH (4.3.0)
K [auth Y]1.10.287.10 Mainly Alpha Orthogonal Bundle Helix Hairpins S15/NS1, RNA-bindingCATH (4.3.0)
L [auth Z]3.30.420.80 Alpha Beta 2-Layer Sandwich Nucleotidyltransferase domain 5CATH (4.3.0)
M [auth a]3.30.1230.20 Alpha Beta 2-Layer Sandwich Hypothetical Cytosolic Protein Chain: ACATH (4.3.0)
N [auth b]3.30.1370.30 Alpha Beta 2-Layer Sandwich Ribosomal Protein S8 Chain: A, domain 1CATH (4.3.0)
N [auth b]3.30.1490.10 Alpha Beta 2-Layer Sandwich Dna Ligase domain 1CATH (4.3.0)
P [auth d]3.30.70.3370 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits CATH (4.3.0)
Q [auth e]3.30.1740.20 Alpha Beta 2-Layer Sandwich first zn-finger domain of poly(adp-ribose) polymerase-1 Ribosomal protein S26CATH (4.3.0)
R [auth f]2.20.25.100 Mainly Beta Single Sheet N-terminal domain of TfIIb Ribosomal protein S27CATH (4.3.0)
B [auth P]3.40.50.10490 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold Glucose-6-phosphate isomerase like proteinCATH (4.3.0)
D [auth R]3.30.160.20 Alpha Beta 2-Layer Sandwich Double Stranded RNA Binding Domain CATH (4.3.0)
D [auth R]3.30.230.10 Alpha Beta 2-Layer Sandwich Ribosomal Protein S5 domain 2CATH (4.3.0)
E [auth S]3.10.290.10 Alpha Beta Roll Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region Chain ACATH (4.3.0)
E [auth S]2.40.50.740 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) Ribosomal protein S4, central domainCATH (4.3.0)
E [auth S]2.30.30.30 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
F [auth T]1.20.5.2650 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix-helix interfaces CATH (4.3.0)
H [auth V]1.10.168.20 Mainly Alpha Orthogonal Bundle Phosducin domain 2CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
J [auth X]PF16205Ribosomal_S17 N-terminal (Ribosomal_S17_N)Ribosomal_S17 N-terminal- Family
J [auth X]PF00366Ribosomal protein S17 (Ribosomal_S17)Ribosomal protein S17- Domain
K [auth Y]PF00312Ribosomal protein S15 (Ribosomal_S15)Ribosomal protein S15- Domain
L [auth Z]PF00411Ribosomal protein S11 (Ribosomal_S11)Ribosomal protein S11- Family
B [auth P]PF00318Ribosomal protein S2 (Ribosomal_S2)Ribosomal protein S2- Family
D [auth R]PF03719Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C)Ribosomal protein S5, C-terminal domain- Domain
D [auth R]PF00333Ribosomal protein S5, N-terminal domain (Ribosomal_S5)Ribosomal protein S5, N-terminal domain- Domain
E [auth S]PF00900Ribosomal family S4e (Ribosomal_S4e)Ribosomal family S4e- Family
E [auth S]PF1612140S ribosomal protein S4 C-terminus (40S_S4_C)40S ribosomal protein S4 C-terminus- Family
E [auth S]PF08071RS4NT (NUC023) domain (RS4NT)RS4NT (NUC023) domainThis is the N-terminal domain of Ribosomal S4 / S4e proteins. This domain is associated with S4 and KOW domains [1].Domain
E [auth S]PF01479S4 domain (S4)S4 domainThe S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.
Domain
E [auth S]PF00467KOW motif (KOW)KOW motif- Family
F [auth T]PF01092Ribosomal protein S6e (Ribosomal_S6e)Ribosomal protein S6e- Family
G [auth U]PF01251Ribosomal protein S7e (Ribosomal_S7e)Ribosomal protein S7e- Family
H [auth V]PF01201Ribosomal protein S8e (Ribosomal_S8e)Ribosomal protein S8e- Family
I [auth W]PF00163Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4)Ribosomal protein S4/S9 N-terminal domain- Family
I [auth W]PF01479S4 domain (S4)S4 domainThe S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth 2]18S ribosomal RNA---
J [auth X]40S ribosomal protein S11-A
K [auth Y]40S ribosomal protein S13
L [auth Z]40S ribosomal protein S14-A
M [auth a]40S ribosomal protein S21-A
N [auth b]40S ribosomal protein S22-A
O [auth c]40S ribosomal protein S23-A
P [auth d]40S ribosomal protein S24-A
Q [auth e]40S ribosomal protein S26-A
R [auth f]40S ribosomal protein S27-A
S [auth g]40S ribosomal protein S30-A
B [auth P]40S ribosomal protein S0-A
T [auth h]Translation initiation factor RLI1
C [auth Q]40S ribosomal protein S1-A
D [auth R]40S ribosomal protein S2
E [auth S]40S ribosomal protein S4-A
F [auth T]40S ribosomal protein S6-A
G [auth U]40S ribosomal protein S7-A
H [auth V]40S ribosomal protein S8-A
I [auth W]40S ribosomal protein S9-A

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
J [auth X]IPR019979Small ribosomal subunit protein uS17, conserved siteConserved Site
J [auth X]IPR032440Small ribosomal subunit protein uS17, N-terminalDomain
J [auth X]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
J [auth X]IPR000266Small ribosomal subunit protein uS17Family
J [auth X]IPR028333Small ribosomal subunit protein uS17, archaeal/eukaryoticFamily
K [auth Y]IPR012606Small ribosomal subunit protein uS15, N-terminalDomain
K [auth Y]IPR009068uS15/NS1, RNA-binding domain superfamilyHomologous Superfamily
K [auth Y]IPR000589Small ribosomal subunit protein uS15Family
K [auth Y]IPR023029Small ribosomal subunit protein uS15, archaea/eukaryotesFamily
L [auth Z]IPR001971Small ribosomal subunit protein uS11Family
L [auth Z]IPR036967Small ribosomal subunit protein uS11 superfamilyHomologous Superfamily
L [auth Z]IPR018102Small ribosomal subunit protein uS11, conserved siteConserved Site
M [auth a]IPR038579Small ribosomal subunit protein eS21 superfamilyHomologous Superfamily
M [auth a]IPR018279Small ribosomal subunit protein eS21, conserved siteConserved Site
M [auth a]IPR001931Small ribosomal subunit protein eS21Family
N [auth b]IPR000630Small ribosomal subunit protein uS8Family
N [auth b]IPR047863Small ribosomal subunit protein uS8, conserved siteConserved Site
N [auth b]IPR035987Small ribosomal subunit protein uS8 superfamilyHomologous Superfamily
O [auth c]IPR006032Small ribosomal subunit protein uS12Family
O [auth c]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
O [auth c]IPR005680Small ribosomal subunit protein uS12, eukaryotic/archaealFamily
P [auth d]IPR001976Small ribosomal subunit protein eS24Family
P [auth d]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
P [auth d]IPR018098Small ribosomal subunit protein eS24 conserved siteConserved Site
Q [auth e]IPR038551Ribosomal protein eS26 superfamilyHomologous Superfamily
Q [auth e]IPR000892Small ribosomal subunit protein eS26Family
Q [auth e]IPR047864Ribosomal protein eS26, conserved siteConserved Site
R [auth f]IPR023407Small ribosomal subunit protein eS27, zinc-binding domain superfamilyHomologous Superfamily
R [auth f]IPR000592Small ribosomal subunit protein eS27Family
R [auth f]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
S [auth g]IPR006846Small ribosomal subunit protein eS30Family
B [auth P]IPR005707Small ribosomal subunit protein uS2, eukaryotic/archaealFamily
B [auth P]IPR023591Small ribosomal subunit protein uS2, flavodoxin-like domain superfamilyHomologous Superfamily
B [auth P]IPR018130Small ribosomal subunit protein uS2, conserved siteConserved Site
B [auth P]IPR001865Small ribosomal subunit protein uS2Family
B [auth P]IPR027498Small ribosomal subunit protein uS2, eukaryoticFamily
T [auth h]IPR007209RNase L inhibitor RLI-like, possible metal-binding domainDomain
T [auth h]IPR017871ABC transporter-like, conserved siteConserved Site
T [auth h]IPR003439ABC transporter-like, ATP-binding domainDomain
T [auth h]IPR0179004Fe-4S ferredoxin, iron-sulphur binding, conserved siteConserved Site
T [auth h]IPR003593AAA+ ATPase domainDomain
T [auth h]IPR0178964Fe-4S ferredoxin-type, iron-sulphur binding domainDomain
T [auth h]IPR013283RLI1Family
T [auth h]IPR034348RLI, domain 1Domain
T [auth h]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
C [auth Q]IPR001593Small ribosomal subunit protein eS1Family
C [auth Q]IPR018281Small ribosomal subunit protein eS1, conserved siteConserved Site
C [auth Q]IPR027500Small ribosomal subunit protein eS1, eukaryotesFamily
D [auth R]IPR000851Small ribosomal subunit protein uS5Family
D [auth R]IPR005711Small ribosomal subunit protein uS5, eukaryotic/archaealFamily
D [auth R]IPR005324Small ribosomal subunit protein uS5, C-terminalDomain
D [auth R]IPR013810Small ribosomal subunit protein uS5, N-terminalDomain
D [auth R]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
D [auth R]IPR018192Small ribosomal subunit protein uS5, N-terminal, conserved siteConserved Site
D [auth R]IPR014721Small ribosomal subunit protein uS5 domain 2-type fold, subgroupHomologous Superfamily
E [auth S]IPR018199Small ribosomal subunit protein eS4, N-terminal, conserved siteConserved Site
E [auth S]IPR013843Small ribosomal subunit protein eS4, N-terminalDomain
E [auth S]IPR032277Small ribosomal subunit protein eS4, C-terminal domainDomain
E [auth S]IPR002942RNA-binding S4 domainDomain
E [auth S]IPR013845Small ribosomal subunit protein eS4, central regionDomain
E [auth S]IPR000876Small ribosomal subunit protein eS4Family
E [auth S]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
E [auth S]IPR038237Small ribosomal subunit protein eS4, central domain superfamilyHomologous Superfamily
E [auth S]IPR041982Small ribosomal subunit protein eS4, KOW domainDomain
E [auth S]IPR036986RNA-binding S4 domain superfamilyHomologous Superfamily
E [auth S]IPR005824KOWDomain
F [auth T]IPR014401Small ribosomal subunit protein eS6-likeFamily
F [auth T]IPR001377Small ribosomal subunit protein eS6Family
F [auth T]IPR018282Small ribosomal subunit protein eS6, conserved siteConserved Site
G [auth U]IPR000554Small ribosomal subunit protein eS7Family
G [auth U]IPR047861Small ribosomal subunit protein eS7, conserved siteConserved Site
H [auth V]IPR001047Small ribosomal subunit protein eS8Family
H [auth V]IPR042563Small ribosomal subunit protein eS8 subdomain, eukaryotesHomologous Superfamily
H [auth V]IPR022309Ribosomal protein eS8/ribosomal biogenesis NSA2Family
H [auth V]IPR018283Small ribosomal subunit protein eS8, conserved siteConserved Site
I [auth W]IPR002942RNA-binding S4 domainDomain
I [auth W]IPR022801Small ribosomal subunit protein uS4Family
I [auth W]IPR018079Small ribosomal subunit protein uS4, conserved siteConserved Site
I [auth W]IPR001912Small ribosomal subunit protein uS4, N-terminalDomain
I [auth W]IPR005710Small ribosomal subunit protein uS4, eukaryotic/archaealFamily
I [auth W]IPR036986RNA-binding S4 domain superfamilyHomologous Superfamily